Hi Dannon, There's your commit where you describe removing it. So why is it still there if I did a git pull (did I do this incorrectly?)? I did a "git log -- cloudlaunch.py" and got the following: commit 303597e48a8503aac09c33910aa5482a374f06a1 Author: Dannon Baker <dannon.baker@gmail.com> Date: Wed Aug 12 14:17:44 2015 -0400 Remove old cloudlaunch in favor of https://github.com/galaxyproject/cloudlaunch, at launch.usegalaxy.org commit 6049a7446897baea74c33a5286b6c086c9da31a8 Author: Dannon Baker <dannon.baker@gmail.com> Date: Tue Jul 21 14:03:22 2015 -0400 Catch and return error message during key verification in cloudlaunch. commit 09719b884806fe1da24b2f7be0f159f1d3b06d04 Author: dannon <dannon.baker@gmail.com> Date: Sat Mar 7 22:51:35 2015 -0500 Cleanup in pbed_to_lped converter . . . On Fri, Aug 26, 2016 at 9:49 AM, Dannon Baker <dannon.baker@gmail.com> wrote:
Can you check the git log for that controller, to see how it got added back to, or remained in, the codebase?
On Fri, Aug 26, 2016, 12:40 PM D K <danielfortin86@gmail.com> wrote:
Hi Dannon,
Yes, the "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/webapps/ galaxy/controllers/cloudlaunch.py" does still exist.
If it's relevant I did a:
git commit -a -m 'changes made locally prior to upgrade to 16.07' git pull origin master
I had to move the file "lib/galaxy/datatypes/checkers.py" but otherwise didn't get any other errors
On Fri, Aug 26, 2016 at 9:38 AM, Dannon Baker <dannon.baker@gmail.com> wrote:
Can you check to see if that file (/remote/home/galaxyd/tmp/gala xy2/lib/galaxy/webapps/galaxy/controllers/cloudlaunch.py) does still exist? If it does not, it may be a leftover .pyc file (which you can delete safely). If you'd like to just clean out *all* the compiled python (which is also safe), run something like ```find <galaxy/lib> -name "*.pyc" -delete```.
On Fri, Aug 26, 2016 at 12:35 PM, D K <danielfortin86@gmail.com> wrote:
I have modified some files in my own local galaxy commit (I think only the sniffers in lib/galaxy/datatypes)
On Fri, Aug 26, 2016 at 9:31 AM, Dannon Baker <dannon.baker@gmail.com> wrote:
Hey DK,
The cloudlaunch controller was deprecated and should not be in 16.07. Is this a custom modification you have?
-Dannon
On Fri, Aug 26, 2016 at 12:30 PM, D K <danielfortin86@gmail.com> wrote:
Hi Galaxy-devs,
I just tried upgrading to 16.07 from 16.01 and get this error when starting up:
> Traceback (most recent call last): > File "./scripts/paster.py", line 26, in <module> > serve.run() > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/serve.py", > line 1061, in run > invoke(command, command_name, options, args[1:]) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/serve.py", > line 1067, in invoke > exit_code = runner.run(args) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/serve.py", > line 223, in run > result = self.command() > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/serve.py", > line 639, in command > app = loadapp( app_spec, name=app_name, relative_to=base, > global_conf=vars) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", > line 292, in loadapp > return loadobj(APP, uri, name=name, **kw) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", > line 317, in loadobj > return context.create() > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", > line 755, in create > return self.object_type.invoke(self) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", > line 274, in invoke > filtered = context.next_context.create() > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", > line 755, in create > return self.object_type.invoke(self) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", > line 191, in invoke > return fix_call(context.object, context.global_conf, > **context.local_conf) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/util/pastescript/loadwsgi.py", > line 94, in fix_call > val = callable(*args, **kw) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/webapps/galaxy/buildapp.py", > line 39, in app_factory > return paste_app_factory( global_conf, **kwargs ) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/webapps/galaxy/buildapp.py", > line 76, in paste_app_factory > webapp.add_ui_controllers( 'galaxy.webapps.galaxy.controllers', > app ) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/web/framework/webapp.py", > line 115, in add_ui_controllers > module = import_module( module_name ) > File "/opt/rh/python27/root/usr/lib64/python2.7/importlib/__init__.py", > line 37, in import_module > __import__(name) > File "/remote/home/galaxyd/tmp/galaxy2/lib/galaxy/webapps/ > galaxy/controllers/cloudlaunch.py", line 16, in <module> > from galaxy.util.json import dumps > ImportError: cannot import name dumps
Any suggestions?
Thanks!
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